During the last decades macroecology has identified broad-scale patterns of abundances and diversity of microbial communities and put forward some potential explanations for them. However, these advances are not paralleled by a full understanding of the underlying dynamical processes. In particular, abundance fluctuations over metagenomic samples are found to be correlated, but reproducing these through appropriate models remains still an open task. The present paper tackles this problem and points to species interactions as a necessary mechanism to account for them. Specifically, we discuss several possibilities to include interactions in population models and recognize Lotka-Volterra constants as successful ansatz. We design a Bayesian inference algorithm to obtain sets of interaction constants able to reproduce the experimental correlation distributions much better than the state-of-the-art attempts. Importantly, the model still reproduces single-species, experimental, macroecological patterns previously detected in the literature, concerning the abundance fluctuations across both species and communities. Endorsed by the agreement with the observed phenomenology, our analysis provides insights on the properties of microbial interactions, and suggests their sparsity as a necessary feature to balance the emergence of different patterns.
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Shrinking pattern dimensions leads to an increased variety of defect types in semiconductor devices. This has spurred innovation in patterning approaches such as Directed self-assembly (DSA) for which no traditional, automatic defect inspection software exists. Machine Learning-based SEM image analysis has become an increasingly popular research topic for defect inspection with supervised ML models often showing the best performance. However, little research has been done on obtaining a dataset with high-quality labels for these supervised models. In this work, we propose a method for obtaining coherent and complete labels for a dataset of hexagonal contact hole DSA patterns while requiring minimal quality control effort from a DSA expert. We show that YOLOv8, a state-of-the-art neural network, achieves defect detection precisions of more than 0.9 mAP on our final dataset which best reflects DSA expert defect labeling expectations. We discuss the strengths and limitations of our proposed labeling approach and suggest directions for future work in data-centric ML-based defect inspection.
This paper presents the development and evaluation of ChatHome, a domain-specific language model (DSLM) designed for the intricate field of home renovation. Considering the proven competencies of large language models (LLMs) like GPT-4 and the escalating fascination with home renovation, this study endeavors to reconcile these aspects by generating a dedicated model that can yield high-fidelity, precise outputs relevant to the home renovation arena. ChatHome's novelty rests on its methodology, fusing domain-adaptive pretraining and instruction-tuning over an extensive dataset. This dataset includes professional articles, standard documents, and web content pertinent to home renovation. This dual-pronged strategy is designed to ensure that our model can assimilate comprehensive domain knowledge and effectively address user inquiries. Via thorough experimentation on diverse datasets, both universal and domain-specific, including the freshly introduced "EvalHome" domain dataset, we substantiate that ChatHome not only amplifies domain-specific functionalities but also preserves its versatility.
Reproducibility of recommender systems research has come under scrutiny during recent years. Along with works focusing on repeating experiments with certain algorithms, the research community has also started discussing various aspects of evaluation and how these affect reproducibility. We add a novel angle to this discussion by examining how unofficial third-party implementations could benefit or hinder reproducibility. Besides giving a general overview, we thoroughly examine six third-party implementations of a popular recommender algorithm and compare them to the official version on five public datasets. In the light of our alarming findings we aim to draw the attention of the research community to this neglected aspect of reproducibility.
Two-component mixture models have proved to be a powerful tool for modeling heterogeneity in several cluster analysis contexts. However, most methods based on these models assume a constant behavior for the mixture weights, which can be restrictive and unsuitable for some applications. In this paper, we relax this assumption and allow the mixture weights to vary according to the index (e.g., time) to make the model more adaptive to a broader range of data sets. We propose an efficient MCMC algorithm to jointly estimate both component parameters and dynamic weights from their posterior samples. We evaluate the method's performance by running Monte Carlo simulation studies under different scenarios for the dynamic weights. In addition, we apply the algorithm to a time series that records the level reached by a river in southern Brazil. The Taquari River is a water body whose frequent flood inundations have caused various damage to riverside communities. Implementing a dynamic mixture model allows us to properly describe the flood regimes for the areas most affected by these phenomena.
In the last decade, replication and reproducibility crises have shaken the scientific landscape. As potential solutions, open science practices were heavily discussed and have been implemented with varying success in different disciplines. We argue, however, that the binary definition of reproducibility, specifically for computational-X disciplines such as computational social science, is insufficient since it is not explicit about the agents and conditions under which results can be reproduced. We expand the definition to avoid "open washing", the practice of fabricating theoretical reproducibility but not supporting practical or verified reproducibility, and introduce a tier system of computational reproducibility based on the concept of verifiability. We identify common barriers to verifiable computational reproducibility, specifically in the field of computational social science, and provide suggestions on how to circumvent common access and computational barriers.
Big data and machine learning tools have jointly empowered humans in making data-driven decisions. However, many of them capture empirical associations that might be spurious due to confounding factors and subgroup heterogeneity. The famous Simpson's paradox is such a phenomenon where aggregated and subgroup-level associations contradict with each other, causing cognitive confusions and difficulty in making adequate interpretations and decisions. Existing tools provide little insights for humans to locate, reason about, and prevent pitfalls of spurious association in practice. We propose VISPUR, a visual analytic system that provides a causal analysis framework and a human-centric workflow for tackling spurious associations. These include a CONFOUNDER DASHBOARD, which can automatically identify possible confounding factors, and a SUBGROUP VIEWER, which allows for the visualization and comparison of diverse subgroup patterns that likely or potentially result in a misinterpretation of causality. Additionally, we propose a REASONING STORYBOARD, which uses a flow-based approach to illustrate paradoxical phenomena, as well as an interactive DECISION DIAGNOSIS panel that helps ensure accountable decision-making. Through an expert interview and a controlled user experiment, our qualitative and quantitative results demonstrate that the proposed "de-paradox" workflow and the designed visual analytic system are effective in helping human users to identify and understand spurious associations, as well as to make accountable causal decisions.
The utilization of finite field multipliers is pervasive in contemporary digital systems, with hardware implementation for bit parallel operation often necessitating millions of logic gates. However, various digital design issues, whether inherent or stemming from soft errors, can result in gate malfunction, ultimately can cause gates to malfunction, which in turn results in incorrect multiplier outputs. Thus, to prevent susceptibility to error, it is imperative to employ a reliable finite field multiplier implementation that boasts a robust fault detection capability. In order to achieve the best fault detection performance for finite field detection performance for finite field multipliers while maintaining a low-complexity implementation, this study proposes a novel fault detection scheme for a recent bit-parallel polynomial basis over GF(2m). The primary concept behind the proposed approach is centered on the implementation of an efficient BCH decoder that utilize Berlekamp-Rumsey-Solomon (BRS) algorithm and Chien-search method to effectively locate errors with minimal delay. The results of our synthesis indicate that our proposed error detection and correction architecture for a 45-bit multiplier with 5-bit errors achieves a 37% and 49% reduction in critical path delay compared to existing designs. Furthermore, a 45-bit multiplicand with five errors has hardware complexity that is only 80%, which is significantly less complex than the most advanced BCH-based fault recognition techniques, such as TMR, Hamming's single error correction, and LDPC-based methods for finite field multiplication which is desirable in constrained applications, such as smart cards, IoT devices, and implantable medical devices.
Priming Cross-Session Motor Imagery Classification with A Universal Deep Domain Adaptation Framework
Motor imagery (MI) is a common brain computer interface (BCI) paradigm. EEG is non-stationary with low signal-to-noise, classifying motor imagery tasks of the same participant from different EEG recording sessions is generally challenging, as EEG data distribution may vary tremendously among different acquisition sessions. Although it is intuitive to consider the cross-session MI classification as a domain adaptation problem, the rationale and feasible approach is not elucidated. In this paper, we propose a Siamese deep domain adaptation (SDDA) framework for cross-session MI classification based on mathematical models in domain adaptation theory. The proposed framework can be easily applied to most existing artificial neural networks without altering the network structure, which facilitates our method with great flexibility and transferability. In the proposed framework, domain invariants were firstly constructed jointly with channel normalization and Euclidean alignment. Then, embedding features from source and target domain were mapped into the Reproducing Kernel Hilbert Space (RKHS) and aligned accordingly. A cosine-based center loss was also integrated into the framework to improve the generalizability of the SDDA. The proposed framework was validated with two classic and popular convolutional neural networks from BCI research field (EEGNet and ConvNet) in two MI-EEG public datasets (BCI Competition IV IIA, IIB). Compared to the vanilla EEGNet and ConvNet, the proposed SDDA framework was able to boost the MI classification accuracy by 15.2%, 10.2% respectively in IIA dataset, and 5.5%, 4.2% in IIB dataset. The final MI classification accuracy reached 82.01% in IIA dataset and 87.52% in IIB, which outperformed the state-of-the-art methods in the literature.
Images can convey rich semantics and induce various emotions in viewers. Recently, with the rapid advancement of emotional intelligence and the explosive growth of visual data, extensive research efforts have been dedicated to affective image content analysis (AICA). In this survey, we will comprehensively review the development of AICA in the recent two decades, especially focusing on the state-of-the-art methods with respect to three main challenges -- the affective gap, perception subjectivity, and label noise and absence. We begin with an introduction to the key emotion representation models that have been widely employed in AICA and description of available datasets for performing evaluation with quantitative comparison of label noise and dataset bias. We then summarize and compare the representative approaches on (1) emotion feature extraction, including both handcrafted and deep features, (2) learning methods on dominant emotion recognition, personalized emotion prediction, emotion distribution learning, and learning from noisy data or few labels, and (3) AICA based applications. Finally, we discuss some challenges and promising research directions in the future, such as image content and context understanding, group emotion clustering, and viewer-image interaction.
This paper aims at revisiting Graph Convolutional Neural Networks by bridging the gap between spectral and spatial design of graph convolutions. We theoretically demonstrate some equivalence of the graph convolution process regardless it is designed in the spatial or the spectral domain. The obtained general framework allows to lead a spectral analysis of the most popular ConvGNNs, explaining their performance and showing their limits. Moreover, the proposed framework is used to design new convolutions in spectral domain with a custom frequency profile while applying them in the spatial domain. We also propose a generalization of the depthwise separable convolution framework for graph convolutional networks, what allows to decrease the total number of trainable parameters by keeping the capacity of the model. To the best of our knowledge, such a framework has never been used in the GNNs literature. Our proposals are evaluated on both transductive and inductive graph learning problems. Obtained results show the relevance of the proposed method and provide one of the first experimental evidence of transferability of spectral filter coefficients from one graph to another. Our source codes are publicly available at: //github.com/balcilar/Spectral-Designed-Graph-Convolutions
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